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Citing CMDGA
Experiment Matrix
Click or enter search terms to filter the experiments included in the matrix.
Assay
184
total RNA-seq
59
ChIP-seq
22
ATAC-seq
3
DNase-seq
3
Hi-C
3
WGBS
3
pCHi-C
3
small RNA-seq
2
STARR-seq
1
RRBS
1
single cell RNA-seq
1
whole genome sequencing assay
Assay category
188
Transcription
59
DNA binding
25
DNA accessibility
4
DNA methylation
3
3D chromatin structure
1
DNA sequencing
Target of assay
58
histone
58
histone modification
narrow histone mark
31
control
17
broad histone mark
11
transcription factor
1
RNA binding protein
Date released
167
May, 2020
40
May, 2022
31
August, 2021
18
August, 2017
10
July, 2019
5
December, 2019
5
October, 2019
3
February, 2021
3
March, 2020
2
June, 2019
1
February, 2020
Available data
631
bam
570
bigWig
fastq
390
bed narrowPeak
344
bigBed narrowPeak
174
tsv
57
bed broadPeak
57
bigBed broadPeak
46
tagAlign
11
bed bed3+
3
bed bedMethyl
3
bigBed bedMethyl
3
tar
2
bedpe bed3+
2
hic
1
bed bed3
1
csv
1
hdf5
1
vcf
Organism
285
Homo sapiens
Biosample type
241
tissue
32
cell line
12
primary cell
Organ
562
connective tissue
436
adipose tissue
353
heart
337
pancreas
292
kidney
285
liver
206
vasculature
203
blood vessel
161
epithelium
158
bone element
152
brain
135
artery
107
limb
81
musculature of body
58
eye
35
nerve
18
ureter
16
skeleton
16
vein
10
embryo
2
intestine
2
pericardium
1
adrenal gland
1
blood
1
bodily fluid
1
esophagus
gonad
1
large intestine
1
lung
1
mammary gland
1
ovary
1
pituitary gland
1
skin of body
1
small intestine
1
spinal cord
1
spleen
1
stomach
1
thymus
1
urinary bladder
Project
285
AMP
Genome assembly (visualization)
202
hg19
165
GRCh38
Lab
216
AMP-T2D consortium
40
Karen Mohlke, UNC
29
Bing Ren, UCSD
Audit category:
1
inconsistent ontology term
1
inconsistent replicate
files.file_type!
fastq
organ_slims!
gonad
target.investigated_as!
narrow histone mark
BIOSAMPLE
ASSAY
285 results
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total RNA-seq
ChIP-seq
ATAC-seq
DNase-seq
Hi-C
WGBS
pCHi-C
small RNA-seq
STARR-seq
RRBS
single cell RNA-seq
whole genome sequencing assay
tissue
liver
167
41
20
1
2
1
1
1
right lobe of liver
3
1
1
2
cell line
HepG2
9
16
1
1
2
2
1
primary cell
hepatocyte
5
2
1
1
Liver fetal (hepatocyte)
1
endothelial cell of hepatic sinusoid
1
hepatic stellate cell
1
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